Transcription factors with Perturb-seq knockdown data for C9orf85. The Binding column indicates whether any binding evidence exists for this TF–gene pair (ChIP-seq or motif footprint peaks). The Mean coef is the average Perturb-seq regression coefficient across active gRNAs (positive = C9orf85 upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.
| TF | Mean coef | Binding | Outlier | TF→Gene link |
|---|
Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of C9orf85, linked by TSS proximity or chromatin conformation (Multiome / HiCAR). Each element overlaps at least one TF ChIP-seq binding site — the TFs column shows how many distinct TFs bind that element.
| Accessibility | Element | Dist. to TSS | Link type | TFs |
|---|---|---|---|---|
| chr9:71,758,098–71,758,920 | 153.2 kb | Distal (>10kb) Multiome | 424 | |
| chr9:71,766,677–71,769,952 | 142.8 kb | Distal (>10kb) Multiome | 840 | |
| chr9:71,910,044–71,912,178 | 285 bp | At TSS Multiome | 992 | |
| chr9:71,920,912–71,921,697 | 9.7 kb | Proximal (<10kb) Multiome | 159 | |
| chr9:72,149,120–72,150,027 | 238.0 kb | Distal (>10kb) Multiome | 555 |
Genomic view of the C9orf85 locus showing ATAC-seq accessibility and RNA-seq expression across the ESC → DE time course, together with TF binding peaks and element-to-TSS loop connections.